Multiple platform build/check report for BioC 3.23 - BUILD results for derfinder on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"	4878
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"	4593
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

BUILD results for derfinder on nebbiolo1

To the developers/maintainers of the derfinder package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/derfinder.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: derfinder

Version: 1.45.0

Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data derfinder

StartedAt: 2025-12-22 17:15:20 -0500 (Mon, 22 Dec 2025)

EndedAt: 2025-12-22 17:20:34 -0500 (Mon, 22 Dec 2025)

EllapsedTime: 313.2 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data derfinder
###
##############################################################################
##############################################################################


* checking for file ‘derfinder/DESCRIPTION’ ... OK
* preparing ‘derfinder’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘derfinder-quickstart.Rmd’ using rmarkdown
Warning: The label(s) fig:firstfive1, fig:firstfive2, fig:firstfive3, fig:firstfive4, fig:firstfive5 not found
--- finished re-building ‘derfinder-quickstart.Rmd’

--- re-building ‘derfinder-users-guide.Rmd’ using rmarkdown
Warning in in_dir(input_dir(), expr) :
  You changed the working directory to /tmp/RtmpQqvPxt/Rbuild3e1ef771b55b70/derfinder/vignettes/analysisResults (probably via setwd()). It will be restored to /tmp/RtmpQqvPxt/Rbuild3e1ef771b55b70/derfinder/vignettes. See the Note section in ?knitr::knit
Could not fetch https://github.com/nellore/rail/blob/master/assets/railrnalogodark.png?raw=true
HttpExceptionRequest Request {
  host                 = "github.com"
  port                 = 443
  secure               = True
  requestHeaders       = []
  path                 = "/nellore/rail/blob/master/assets/railrnalogodark.png"
  queryString          = "?raw=true"
  method               = "GET"
  proxy                = Nothing
  rawBody              = False
  redirectCount        = 10
  responseTimeout      = ResponseTimeoutDefault
  requestVersion       = HTTP/1.1
}
 NoResponseDataReceived
Error: processing vignette 'derfinder-users-guide.Rmd' failed with diagnostics:
pandoc document conversion failed with error 61
--- failed re-building ‘derfinder-users-guide.Rmd’

SUMMARY: processing the following file failed:
  ‘derfinder-users-guide.Rmd’

Error: Vignette re-building failed.
Execution halted